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Itgb3bp integrin subunit beta 3 binding protein [ Rattus norvegicus (Norway rat) ]

Gene ID: 362548, updated on 6-Jun-2024

Summary

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Symbol
Itgb3bpprovided by RGD
Full Name
integrin subunit beta 3 binding proteinprovided by RGD
Primary source
RGD:1310044
See related
Ensembl:ENSRNOG00000009116 AllianceGenome:RGD:1310044
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to be involved in several processes, including CENP-A containing chromatin assembly; apoptotic process; and regulation of transcription, DNA-templated. Predicted to be located in kinetochore and nucleus. Predicted to be active in nucleoplasm. Orthologous to human ITGB3BP (integrin subunit beta 3 binding protein). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Testes (RPKM 108.4), Thymus (RPKM 66.5) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Itgb3bp in Genome Data Viewer
Location:
5q33
Exon count:
18
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (119575657..119640974, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (114460217..114525538, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (118476410..118541928, complement)

Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102556374 Neighboring gene forkhead box D3 Neighboring gene uncharacterized LOC134479015 Neighboring gene ALG6, alpha-1,3-glucosyltransferase Neighboring gene EF-hand calcium binding domain 7 Neighboring gene phosphoglucomutase 1 Neighboring gene receptor tyrosine kinase-like orphan receptor 1 Neighboring gene RNA, U6 small nuclear 233

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
  3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

Pathways from PubChem

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General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Process Evidence Code Pubs
involved_in CENP-A containing chromatin assembly IEA
Inferred from Electronic Annotation
more info
  
involved_in apoptotic process IEA
Inferred from Electronic Annotation
more info
  
involved_in cell division IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within negative regulation of epithelial cell apoptotic process ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within positive regulation of epithelial cell proliferation ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
part_of inner kinetochore ISO
Inferred from Sequence Orthology
more info
  
located_in kinetochore IEA
Inferred from Electronic Annotation
more info
  
located_in kinetochore ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleoplasm IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
centromere protein R
Names
CENP-R
beta3-endonexin
integrin beta 3 binding protein (beta3-endonexin)
nuclear receptor-interacting factor 3

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001013213.1 → NP_001013231.1  centromere protein R

    See identical proteins and their annotated locations for NP_001013231.1

    Status: PROVISIONAL

    Source sequence(s)
    BC086363
    UniProtKB/Swiss-Prot
    Q5U1Z7
    UniProtKB/TrEMBL
    A0A0G2K8A1, A6JRM1
    Related
    ENSRNOP00000074527.1, ENSRNOT00000090393.2
    Conserved Domains (1) summary
    pfam06729
    Location:27 → 162
    CENP-R; Kinetochore component, CENP-R

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

  1. NC_086023.1 Reference GRCr8

    Range
    119575657..119640974 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039110271.2 → XP_038966199.1  centromere protein R isoform X2

    Conserved Domains (1) summary
    pfam06729
    Location:123 → 259
    CENP-R; Kinetochore component, CENP-R

  2. XM_039110272.2 → XP_038966200.1  centromere protein R isoform X3

    UniProtKB/TrEMBL
    A0A8I6ARY4
    Related
    ENSRNOP00000094591.1
    Conserved Domains (1) summary
    pfam06729
    Location:123 → 259
    CENP-R; Kinetochore component, CENP-R

  3. XM_017593484.3 → XP_017448973.1  centromere protein R isoform X11

    UniProtKB/TrEMBL
    A0A0G2K8A1, A0A8L2Q6X3
    Related
    ENSRNOP00000012947.5

  4. XM_063287953.1 → XP_063144023.1  centromere protein R isoform X6

    UniProtKB/TrEMBL
    A0A8I6ALN1

  5. XM_063287950.1 → XP_063144020.1  centromere protein R isoform X1

  6. XM_063287958.1 → XP_063144028.1  centromere protein R isoform X10

  7. XM_063287954.1 → XP_063144024.1  centromere protein R isoform X7

    UniProtKB/TrEMBL
    A0A8I5ZKI1

  8. XM_063287952.1 → XP_063144022.1  centromere protein R isoform X5

    UniProtKB/TrEMBL
    A0A8I5ZKI1

  9. XM_063287962.1 → XP_063144032.1  centromere protein R isoform X13

  10. XM_063287964.1 → XP_063144034.1  centromere protein R isoform X13

  11. XM_063287959.1 → XP_063144029.1  centromere protein R isoform X10

  12. XM_063287960.1 → XP_063144030.1  centromere protein R isoform X10

  13. XM_063287951.1 → XP_063144021.1  centromere protein R isoform X4

    UniProtKB/TrEMBL
    A0A8I5ZKI1

  14. XM_063287967.1 → XP_063144037.1  centromere protein R isoform X13

  15. XM_063287965.1 → XP_063144035.1  centromere protein R isoform X13

  16. XM_063287963.1 → XP_063144033.1  centromere protein R isoform X13

  17. XM_063287957.1 → XP_063144027.1  centromere protein R isoform X9

  18. XM_063287961.1 → XP_063144031.1  centromere protein R isoform X12

  19. XM_063287955.1 → XP_063144025.1  centromere protein R isoform X8

RNA

  1. XR_005504482.2 RNA Sequence

  2. XR_005504480.2 RNA Sequence

  3. XR_005504481.2 RNA Sequence

  4. XR_010066419.1 RNA Sequence

  5. XR_010066417.1 RNA Sequence

  6. XR_010066418.1 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q5U1Z7.1 GenPept UniProtKB/Swiss-Prot:Q5U1Z7

Gene LinkOut

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